Antibody Development to HCV Alternate Reading Frame Protein in Liver Transplant Candidate and its Computational Analysis

Musavi, Zahra; Hashempour, Tayebeh; Moayedi, Javad; Dehghani, Behzad; Ghassabi, Farzaneh; Hallaji, Mehrdad; Hosseini, Seyed Younes; Yaghoubi, Ramin; Gholami, Somayeh; Dehyadegari, Mohamad Ali; Merat, Shahin

doi:10.2174/1570164617666190822103329

Cited by 8 publications

(3 citation statements)

References 63 publications

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“…Bioinformatics has provided a great context to define the structure of virus proteins (Behzad et al 2019;Dehghani et al 2017Dehghani et al , 2019aMoattari et al 2015;Zahra et al 2020). Bioinformatics tools were employed widely in this research to determine the structure of L1 and illustrated that the majority of the secondary structures belonged to the random coil and extended strand.…”

Section: Discussionmentioning

confidence: 98%

The possible regions to design Human Papilloma Viruses vaccine in Iranian L1 protein

et al. 2019

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Human Papilloma Virus (HPV) genome encodes several proteins, as L1is major capsid protein and L2 is minor capsid protein. Among all HPV types HPV-16 and HPV-18 are the most common high-risk HPV (HR-HPV) types globally and the majority of cases are infected with these types. HPV entry and the initial interaction with the host cell are mainly related to the L1 protein which is the main component of HPV vaccines. The aim of this research was comparison analysis among all Iranian L1 protein sequences submitted in NCBI GenBank to find the major substitutions as well as structural and immune properties of this protein. All sequences HPV L1 protein from Iranian isolates from 2014 to 2016 were selected and obtained from NCBI data bank. "CLC Genomics Workbench" was used to translate alignment. To predict B cell epitopes, we employed several programs. Modification sites such as phosphorylation, glycosylation, and disulfide bonds were determined. Secondary and tertiary structures of all sequences were analyzed. Several mutations were found and major mutations were in amino acid residues 102, 202, 207, 292, 379, and 502. The mentioned mutations showed the minor effect on B cell and physicochemical properties of the L1 protein. Six disulfide bonds were determined in L1 protein and also in several N-link glycosylation and phosphorylation sites. Five L1 loops were determined, which had great potential to be B cell epitopes with high antigenic properties. All in all, this research as the first report from Iran described the tremendous potential of two L1 loops (BC and FG) to induce immune system which can be used as the descent candidate to design a new vaccine against HPV in the Iranian population. In addition, some differences between the reference sequence and Iranian patients' sequences were determined. It is essential to consider these differences to monitor the effectiveness and efficacy of the vaccine for the Iranian population. Our results provide a vast understanding of L1 protein that can be useful for further studies on HPV infections and new vaccine generations.

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Section: Discussionmentioning

confidence: 98%

The possible regions to design Human Papilloma Viruses vaccine in Iranian L1 protein

et al. 2019

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“…It has also been reported that PFDN2 plays an important role in the development of chronic HCV infection and liver disease. 31 The long-term hepatitis can cause liver cancer, so there may be some interaction between PFDN2 and liver cancer to affect tumors. Recent studies have found 32 that various subunits of PFDN have a high affinity with HDAC1 in hepatocellular carcinoma HepG2 cells, which further provides a basis for this hypothesis.…”

Section: Pfdn2 Can Be Used As a Tumor Biomarkermentioning

confidence: 99%

<p>The Role of Prefoldin and Its Subunits in Tumors and Their Application Prospects in Nanomedicine</p>

Mo¹,

Zhao²,

Tian³

et al. 2020

CMAR

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Prefoldin (PFDN) is a hexameric chaperone complex that is widely found in eukaryotes and archaea and consists of six different subunits (PFDN1-6). Its main function is to transfer actin and tubulin monomers to the eukaryotic cell cytoplasmic chaperone protein (c-CPN) specific binding during the assembly of the cytoskeleton, to stabilize the newly synthesized peptides so that they can be folded correctly. The current study found that each subunit of PFDN has different functions, which are closely related to the occurrence, development and prognosis of tumors. However, the best characteristics of each subunit have not been fully affirmed. The connection between research and tumors can change the understanding of PFDN and further extend its potential prognostic role and structural function to cancer research and clinical practice. This article mainly reviews the role of canonical PFDN and its subunits in tumors and other diseases, and discusses the potential prospects of the unique structure and function of PFDN in nanomedicine.

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“…2.3. InvH physicochemical properties "Expasy's ProtParam" (http://expasy.org/ tools/protparam.html) was used to determine theoretical isoelectric point (pI), instability index, aliphatic index, and grand average hydropathy (GRAVY) [17][18][19].…”

Section: Amino Acid Changing and Phylogenetic Treesmentioning

confidence: 99%

Immunogenicity, antigenicity and epitope mapping of Salmonella InvH protein: An in silico study

et al. 2020

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InvH is an indispensable part of T3SS-I and has a significant role in SPI-I mediated effector protein translocation. The InvH mutations have significant effects including reduced secretory and inflammatory responses that result from preventing the normal secretion of several proteins. Our team previous studies showed the capable ability of InvH to induce the humoral immune system to prevent almost all Salmonella strains infections. The current study aimed to determine all aspects of this protein using several bioinformatics tools and find the differences among all Salmonella strains. This data could pave the way for further studies about InvH protein and the production of an effective vaccine against Salmonella infections. InvH sequences for all Salmonella strains were obtained from GenBank and analyzed to determine physicochemical properties, B-Cell and T-Cell epitopes, and reliable structures. Results showed some minimal differences among Salmonella strains. B-Cell and T-Cell epitopes predicted by numerous software approved the ability of this protein to induce both humoral and cellular immune systems remarkably. This study provided a comprehensive data to determine all features of InvH protein and our results showed the ability of this protein to design a capable vaccine and the effect of amino acid changes on structure and physicochemical properties, and epitopes.

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Antibody Development to HCV Alternate Reading Frame Protein in Liver Transplant Candidate and its Computational Analysis

Cited by 8 publications

References 63 publications

The possible regions to design Human Papilloma Viruses vaccine in Iranian L1 protein

The possible regions to design Human Papilloma Viruses vaccine in Iranian L1 protein

<p>The Role of Prefoldin and Its Subunits in Tumors and Their Application Prospects in Nanomedicine</p>

Immunogenicity, antigenicity and epitope mapping of Salmonella InvH protein: An in silico study

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